Bioconductor

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https://doi.org/10.12688/f1000research.7016.2
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Revised
From reads to regions: a Bioconductor workflow to detect differential binding in ChIP-seq data
[version 2; peer review: 2 approved, 1 approved with reservations]
Aaron T. L. Lun, Gordon K. Smyth
Peer Reviewers Lihua Julie Zhu and Jianhong Ou; Cenny Taslim; Rory Stark
LATEST VERSION PUBLISHED 11 Jan 2016
https://doi.org/10.12688/f1000research.6925.1
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GOsummaries: an R Package for Visual Functional Annotation of Experimental Data
[version 1; peer review: 2 approved]
Raivo Kolde, Jaak Vilo
Peer Reviewers Shaillay Dogra; Hilary Ann Coller
PUBLISHED 18 Aug 2015
https://doi.org/10.12688/f1000research.3928.2
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Update
edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR-Cas9 genetic screens
[version 2; peer review: 3 approved]
Zhiyin Dai, Julie M. Sheridan, Linden J. Gearing, Darcy L. Moore, Shian Su, Sam Wormald, Stephen Wilcox, Liam O'Connor, Ross A. Dickins, Marnie E. Blewitt, Matthew E. Ritchie
Peer Reviewers James W. MacDonald; Ross Lazarus; Sumit Deswal
LATEST VERSION PUBLISHED 21 Oct 2014
https://doi.org/10.12688/f1000research.4680.2
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Revised
shinyMethyl: interactive quality control of Illumina 450k DNA methylation arrays in R
[version 2; peer review: 2 approved]
Jean-Philippe Fortin, Elana Fertig, Kasper Hansen
Peer Reviewers Timothy J. Triche; Tiffany J. Morris
LATEST VERSION PUBLISHED 19 Sep 2014
https://doi.org/10.12688/f1000research.2-192.v2
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Revised
Cyrface: An interface from Cytoscape to R that provides a user interface to R packages
[version 2; peer review: 3 approved]
Emanuel Gonçalves, Franz Mirlach, Julio Saez-Rodriguez
Peer Reviewers Nikolaus Schultz and B. Arman Aksoy; Ghislain Bidaut; Paul T. Shannon
LATEST VERSION PUBLISHED 01 Jul 2014
https://doi.org/10.12688/f1000research.2-264.v1
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illuminaio: An open source IDAT parsing tool for Illumina microarrays
[version 1; peer review: 2 approved]
Mike L Smith, Keith A. Baggerly, Henrik Bengtsson, Matthew E. Ritchie, Kasper D. Hansen
Peer Reviewers Jan Oosting; Tiffany J. Morris
PUBLISHED 04 Dec 2013
81-86 of 86 ARTICLES
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